mspire: mass spectrometry proteomics in Ruby.
Mass spectrometry-based proteomics stands to gain from additional analysis of its data, but its large, complex datasets make demands on speed and memory usage requiring special consideration from scripting languages. The software library 'mspire'-developed in the Ruby programming language-offers quick and memory-efficient readers for standard xml proteomics formats, converters for intermediate file types in typical proteomics spectral-identification work flows (including the Bioworks .srf format), and modules for the calculation of peptide false identification rates.


BACKGROUND
Freely available at http://mspire.rubyforge.org. Additional data models, usage information, and methods available at http://bioinformatics.icmb.utexas.edu/mspire
Prince
John T
JT
Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78712, USA.
Marcotte
Edward M
EM
D030562:Databases, Protein; D013058:Mass Spectrometry; D011381:Programming Languages; D040901:Proteomics / Q000379:methods*; D012984:Software